BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0100.0043.p (333 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309602|ref|YP_003773694.1| GGDEF domain-containing protein... 417 e-118 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 98 9e-22 gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767... 96 4e-21 gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodies... 92 9e-20 gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspi... 91 1e-19 >gi|300309602|ref|YP_003773694.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 384 Score = 417 bits (1071), Expect = e-118, Method: Compositional matrix adjust. Identities = 226/331 (68%), Positives = 262/331 (79%) Query: 2 LALLRSHGFLLIGIWFANGLLIVAHWLFLAGVARFTNTRLSRGWRLIGVAWLAVLLLPTE 61 LALLRS G+LL+GIWFANGLLI AH FLAGVA F TR+SR W LI + WL +LLLPT Sbjct: 51 LALLRSRGYLLVGIWFANGLLIAAHACFLAGVAGFMRTRISRAWWLIALLWLLMLLLPTH 110 Query: 62 PWWSRVMLCIQSLLIGGVTLRASFLLRPHGVSLSVGAVQLRYVLLAHGLFYVAKAGSTVA 121 WWSRVML +QSL+I +TLRAS LLRPHG SLSVGAVQLRYVLL HGLFY+AKA S +A Sbjct: 111 AWWSRVMLGLQSLMIAVLTLRASSLLRPHGASLSVGAVQLRYVLLIHGLFYLAKAVSALA 170 Query: 122 LGALVDLAAFRGGVIQISLVEGAMAIMLIALSMTGTERHRREERIEQLAARDPLTALYNR 181 LGA+VDLAAF G +IQISLVEG+MA+MLIALSMTGTERHRREERI QLAARDPLT L NR Sbjct: 171 LGAVVDLAAFGGTLIQISLVEGSMAVMLIALSMTGTERHRREERIGQLAARDPLTGLLNR 230 Query: 182 RALDKRAPALLAQASPATPGALLLIDIDNFKQVNDLHGHSAGDRLLVALSEMIRDALPRG 241 RAL RAPAL+AQAS A PGALLLIDIDNFKQVNDLHGH+AGD+LL ALS ++R+ LP Sbjct: 231 RALQARAPALIAQASQAHPGALLLIDIDNFKQVNDLHGHAAGDKLLEALSTLLREVLPDD 290 Query: 242 SLAARLGGDEFVILLREASGDSVVALGNGLREVFGQMARETFSTPSAVTLSMGATLFDQP 301 +LAARLGGDEF ILL + V +G LR+ F + + +TP AV+LS+G +LF Sbjct: 291 ALAARLGGDEFAILLPDGRQAQVAHIGEQLRQAFVHVTQTAVATPEAVSLSVGVSLFSTA 350 Query: 302 PPDLAALLERGDVALYESKRGGRDSVRVAPA 332 DLA L+ R D ALYE+KR GR+ + + P+ Sbjct: 351 ALDLAGLMARADAALYEAKRAGRNQIVITPS 381 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 98.2 bits (243), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 67/176 (38%), Positives = 100/176 (56%), Gaps = 11/176 (6%) Query: 163 EERIEQLAARDPLTALYNRRALDKRAPALLA-----QASPATPGALLLIDIDNFKQVNDL 217 E+++E LA D LT L NRR+LD+ ALLA Q SP + L ID+D FK+ ND Sbjct: 320 EKQLEDLARTDGLTGLLNRRSLDE---ALLAVWQRSQRSPTAGFSTLFIDVDYFKRYNDT 376 Query: 218 HGHSAGDRLLVALSEMIRDALPR-GSLAARLGGDEFVILLREASGDSVVALGNGLRE-VF 275 +GH GD +L A++ ++R+ L R LA R GG+EFV+LL + + + L E ++ Sbjct: 377 YGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTDEHGALRMAQQLCEAIY 436 Query: 276 GQMARETFSTPSAVTLSMG-ATLFDQPPPDLAALLERGDVALYESKRGGRDSVRVA 330 + + S +++S+G AT+ P + +L D ALY +KR GR+ V VA Sbjct: 437 NRGIPHSGSPLGVISVSIGVATMNRAPHQRMEDVLNAADHALYIAKREGRNRVCVA 492 >gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767 [Herbaspirillum seropedicae SmR1] Length = 534 Score = 95.9 bits (237), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 89/322 (27%), Positives = 142/322 (44%), Gaps = 66/322 (20%) Query: 57 LLPTEPWWSRVMLCIQSLLIGGVTLRASFLLRPHGVSLSVGAVQLRYVLLAHGLFYVAKA 116 LL W S + +QSL+ G ++ SL+ L+ V+ GL + Sbjct: 215 LLEQGSWLSSQIETVQSLIAGPLST----------TSLADATKNLKEVIYKQGLLKNTLS 264 Query: 117 GSTVA-----------LGALVDLA-----AFRGGVIQISLVEGAMAIMLIALS--MTGTE 158 V L A+V RG QIS G +A + LS MT T+ Sbjct: 265 EEKVVVKNMMLTFVDRLSAMVSTTDNYQRTIRGFSQQISQA-GNIADLNSVLSEIMTETQ 323 Query: 159 R-------------------HRREERIE----------QLAARDPLTALYNRRALDKRAP 189 + + EERI+ +L D LT NRR +D+ Sbjct: 324 KAQEEATRSRDAMEDARQEVEKAEERIQTLEQQLLQMGELVREDQLTGSLNRRGMDESLD 383 Query: 190 ALLAQA-SPATPGALLLIDIDNFKQVNDLHGHSAGDRLLVALSEMIRDALPRGSLAARLG 248 + A TP + L+D+D+FK++ND HGH+ GD +LV + ++IR+ L + + AR G Sbjct: 384 REITNALRRDTPLCVALLDLDDFKRINDTHGHATGDEVLVHMVQVIRETLRKLDVIARFG 443 Query: 249 GDEFVILLREASGDSVVALGNGLREVFGQMARETFSTPSA---VTLSMGATLFDQPPPDL 305 G+EF++L+ E + V + + V ++ + F S +T S G ++ P Sbjct: 444 GEEFLVLMPETAPQDAVQI---ITRVQRELTKRIFMHESQRLLITFSAGVAVY-HPGESQ 499 Query: 306 AALLERGDVALYESKRGGRDSV 327 A LL+R DVALY++K G++ + Sbjct: 500 ADLLKRADVALYKAKNAGKNRI 521 >gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodiesterase A protein [Herbaspirillum seropedicae SmR1] Length = 1002 Score = 91.7 bits (226), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 63/186 (33%), Positives = 93/186 (50%), Gaps = 7/186 (3%) Query: 140 LVEGAMAIMLIALSMTGTERHRREERIEQLAARDPLTALYNRRALDKRA-PALLAQASPA 198 LVE + + +A+ ER RI QLA D LT L NR L +A A+ A Sbjct: 533 LVEAGLHLCALAI-----EREDARARIHQLAFYDSLTGLPNRSLLLVQAGQAIAAAERNC 587 Query: 199 TPGALLLIDIDNFKQVNDLHGHSAGDRLLVALSEMIRDALPRGSLAARLGGDEFVILLRE 258 + A++ ID+D FKQVND GH AGD LL ++ ++ R + RL GDEFV++L + Sbjct: 588 STVAVMFIDLDRFKQVNDSLGHQAGDELLRTVATRLQSQARRSDIVGRLSGDEFVVVLTQ 647 Query: 259 ASGDSVVALGNGLREVFGQMARETFSTPSAVTLSMGATLFDQPPPDLAALLERGDVALYE 318 + + ++E M TP + S+G +F D+ LL R D+A+Y+ Sbjct: 648 YDTQHLTEVVKRIQERLA-MPCHINGTPLNPSASIGVAIFPDNGNDIETLLHRADIAMYQ 706 Query: 319 SKRGGR 324 +K R Sbjct: 707 AKAVNR 712 >gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 706 Score = 90.9 bits (224), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 60/172 (34%), Positives = 90/172 (52%), Gaps = 7/172 (4%) Query: 161 RREERIEQLAARDPLTALYNRRAL-DKRAPALLAQASPATPGALLLIDIDNFKQVNDLHG 219 R +++ A D LT L NR L D+ A+ A+L +D+D FK +ND G Sbjct: 253 RTNDKLLHFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMDLDGFKAINDSLG 312 Query: 220 HSAGDRLLVALSEMIRDALPRGSLAARLGGDEFVILLREASGDSVVALGNGLREVFGQMA 279 H+ GD LLVA+++ IR L + AR+GGDEFV+++ S VV L E Sbjct: 313 HAVGDGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDVV---EQLSENILAAL 369 Query: 280 RETFSTPSA---VTLSMGATLFDQPPPDLAALLERGDVALYESKRGGRDSVR 328 R+ F A VT S+G ++ + AL++ D A+YE+K+ GR++ R Sbjct: 370 RQDFQIDDATLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTYR 421 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.325 0.139 0.410 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,125,634 Number of extensions: 49576 Number of successful extensions: 342 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 285 Number of HSP's successfully gapped: 39 Length of query: 333 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 247 Effective length of database: 1,212,660 Effective search space: 299527020 Effective search space used: 299527020 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 131 (55.1 bits)